PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009121539.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family CO-like
Protein Properties Length: 337aa    MW: 37950.4 Da    PI: 6.662
Description CO-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009121539.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-B_box21.16.6e-071052440
        zf-B_box  4 rkCpeHeekelqlfCedCqqllCedClleeHkg......Htvv 40
                    ++C+++ +   + +C+ ++ +lC +C  ++H+       H++v
  XP_009121539.1 10 QTCDTCRSAACTVYCRPDSAYLCTSCDAQIHEAnrlasrHERV 52
                    79******99*********************767788888876 PP
2zf-B_box35.71.7e-115297342
        zf-B_box  3 erkCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42
                     r+C+ +e+ ++ +fC+ +   lC  C +++H+       H++vp+
  XP_009121539.1 52 VRVCQSCERAPAAFFCKADAASLCTACDSQIHSAnplarrHQRVPI 97
                    689*****************************66899999**9997 PP
3CCT67.43.8e-23267311145
             CCT   1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkqae 45 
                     R+a+++RY+eK+ktRkFeK+irY+sRK++Ae+RpR+KGrF+k++e
  XP_009121539.1 267 RKARVMRYREKKKTRKFEKTIRYASRKEYAEKRPRIKGRFAKRNE 311
                     9*****************************************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5011910.608754IPR000315B-box-type zinc finger
SMARTSM003362.2E-8754IPR000315B-box-type zinc finger
CDDcd000213.84E-71254No hitNo description
PROSITE profilePS5011912.2875097IPR000315B-box-type zinc finger
PfamPF006434.1E-95297IPR000315B-box-type zinc finger
CDDcd000211.13E-95397No hitNo description
SMARTSM003361.9E-125597IPR000315B-box-type zinc finger
PfamPF062032.3E-17267309IPR010402CCT domain
PROSITE profilePS5101716.648267309IPR010402CCT domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007623Biological Processcircadian rhythm
GO:0009909Biological Processregulation of flower development
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048576Biological Processpositive regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005622Cellular Componentintracellular
GO:0008270Molecular Functionzinc ion binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 337 aa     Download sequence    Send to blast
MLKQEGNWAQ TCDTCRSAAC TVYCRPDSAY LCTSCDAQIH EANRLASRHE RVRVCQSCER  60
APAAFFCKAD AASLCTACDS QIHSANPLAR RHQRVPILPI SGSMVTNHSS ETTEAEDIVV  120
VGQEEEDEAE AASWLLPTSV KNCGDNNNNN NNSQDNRFSV GEEYLDLVDY SKYQQDYNVP  180
QRRSYVADGV VPLQVEVSKS LSHMHHEQHN FQFGFTNVSS EASPIHMVSL VPESTLSETT  240
VSNPRSPKAA TEELPEAPVQ MLSPMERKAR VMRYREKKKT RKFEKTIRYA SRKEYAEKRP  300
RIKGRFAKRN EVDAEEADKA FSSMVMFDTG YGIVPSF
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.229090.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development.
UniprotTISSUE SPECIFICITY: Highly expressed in leaves and at lower levels in stems, flowers and siliques. Not detected in roots.
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor that may be involved in the light input to the circadian clock but does not affect flowering time.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009121539.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ5340660.0DQ534066.1 Brassica juncea constans-like 1 protein (COL1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009121539.10.0PREDICTED: zinc finger protein CONSTANS-LIKE 1
SwissprotO500551e-152COL1_ARATH; Zinc finger protein CONSTANS-LIKE 1
TrEMBLM4CWS10.0M4CWS1_BRARP; Uncharacterized protein
STRINGBra008668.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21282670
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15850.11e-132CONSTANS-like 1
Publications ? help Back to Top
  1. Simon S,Rühl M,de Montaigu A,Wötzel S,Coupland G
    Evolution of CONSTANS Regulation and Function after Gene Duplication Produced a Photoperiodic Flowering Switch in the Brassicaceae.
    Mol. Biol. Evol., 2015. 32(9): p. 2284-301
    [PMID:25972346]
  2. An C, et al.
    Mediator subunit MED25 links the jasmonate receptor to transcriptionally active chromatin.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(42): p. E8930-E8939
    [PMID:28973940]
  3. Ordoñez-Herrera N, et al.
    The Transcription Factor COL12 Is a Substrate of the COP1/SPA E3 Ligase and Regulates Flowering Time and Plant Architecture.
    Plant Physiol., 2018. 176(2): p. 1327-1340
    [PMID:29187570]